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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaagctgataagtatttctgatttgataatttctctcggtgaatctcagtccggttgtacatgccaatgtaatttaaagtctgctataattgaatttcagATTTGTGTTATTTGTAAGGAAATTCATGGTTCGTGCACACAATGTTGCAAGTGTTCCACTTATTTCCATGCTATGTGTGCATCAAGGGCTGGTTATCGGA

Basic information

species Glycine max
transcript GLYMA19G17460.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G17460.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g46700.1 (Oryza sativa), 3'ss of exon 13
-----aaagctgataagtatttctgattt-----gataatttctctcggtgaatctcagtccgg-ttgtacatgccaatgtaatt------------taaagtctgctataattga--atttcagATTTGTGTTATTTGTAAGGAAATTCATGGTTCGTGCACACAATGTTGCAAGTGTTCCACTTATTTCCATGCTATGTGTGCATCAAGGGCTGGTTATCGGA
     | |  ||     ||| |    | |     ||  |||  ||| |   ||| | |    |  ||||| ||   | |  || |            | | |  |  | | ||  |    | ||||| ||||| ||||||| | |||| ||||||||||| ||||| || | || ||| || ||||||| |||||| || |||||||||||||| || ||| |||
gtagtataattggatgatatattaagtgtcttaagaagattaatcttgaacaatattaaaatgtcttgtatattgaagttgaactacaaaactctaattatgcttattctcatccattgctccagATGTGTGTCATTTGTAGGCAAATACATGGTTCGTGTACACAGTGCTACAGGTGCTCAACTTATTACCATGCCATCTGTGCATCAAGGGCAGGCTATAGGA

upper sequence: GLYMA19G17460.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G170412_T01 (Zea mays), 3'ss of exon 13
aaagctgataagtatttctgatttg-----ataatttctctcg-----gtgaatct-cagtccggttgtacatgccaatgt-----------aatttaaagtctgctataattgaattt--cagATTTGTGTTATTTGTAAGGAAATTCATGGTTCGTGCACACAATGTTGCAAGTGTTCCACTTATTTCCATGCTATGTGTGCATCAAGGGCTGGTTATCGGA
   | || | |   ||  |  |||      ||||||| | | |     ||| ||   |   |  ||  |||||  |  ||            | | ||   |||    | ||  |  |   ||||| ||||| ||||||||| |||| |||||||| || || ||||| | || ||| || ||||| | |||||| || |||||||||||||| || ||||| |
---gttgtttatctttcgtagtttcgtactataatttatgttgctcaagtggattgaccaacaagtaatacatttctgtgctgaagtatggcagtctatgctctatgctcatctatctctgcagATGTGTGTGATTTGTAAGCAAATACATGGTTCATGTACTCAATGCTACAGGTGCTCTACTTACTACCATGCCATTTGTGCATCAAGGGCAGGCTATCGAA

upper sequence: GLYMA19G17460.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 14
aaagctgataagtatt--tctgatttgataatttctctcggtgaatctcagtccggttgtacatgccaatgtaatttaaagtctgctataatt----gaatttcagATTTGTGTTATTTGTAAGGAAATTCATGGTTCGTGCACACAATGTTGCAAGTGTTCCACTTATTTCCATGCTATGTGTGCATCAAGGGCTGGTTATCGGA
     |   || | ||    |||| |   |  ||   | |||     |      |  | | || ||  |||| || | | || |||  |  ||    ||| |||||||||| || || |||||| |||| |||||||| |||||||| |||||||||||||| ||||| | |||||| ||||||||||||||||| || ||||| |
----tttgaaaatgttagcatgatgtttaatattgagttggttttcttgcacatgaatcttca-gctgatgtgatctga-gtttgccttgttttcatgaaattcagATTTGCGTAATCTGTAAGCAAATACATGGTTCATGCACACAGTGTTGCAAGTGTTCTACTTACTACCATGCAATGTGTGCATCAAGGGCGGGGTATCGTA

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|37996740|gb|CF808329.1|CF808329
EST:     TGGAGCCTGCATTGGGTATTCTGAGTATTCCATTGAATTCTTTTGTGAAG                         ATTTGTGTTATTTGTAAGGAAATTCATGGTTCGTGCACACAATGTTGCAAG
genomic: TGGAGCCTGCATTGGGTATTCTGAGTATTCCATTGAATTCTTTTGTGAAGgtgggggttt ... tgaatttcagATTTGTGTTATTTGTAAGGAAATTCATGGTTCGTGCACACAATGTTGCAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagtccggttgtacatgccaatgtaatttaaagtctgctataattgaatttcagATTTGTGTTATTTGTAAGGAAATTCATGGTTCGTGCACACAATGTTGCAAGTGTTCCACTTATTTCCATGCTATGTGTGCATCAAGGGCTGGTTATCGGA
                    aatgtaatttaaagt  TA-rich tract